Refine
Year of publication
- 2015 (100) (remove)
Document Type
- Doctoral Thesis (100) (remove)
Language
- English (100) (remove)
Has Fulltext
- yes (100)
Is part of the Bibliography
- no (100)
Keywords
- AMPK, nuclear receptors, PPAR, LXR, fatty acid oxidation, ABCA1, human macrophages (1)
- Agapetes (1)
- AlignMe (1)
- Alignment (1)
- Archaeology (1)
- Bartonella henselae (1)
- Bayesian Network (1)
- Bungarus (1)
- Bungarus niger (1)
- Bungarus walli (1)
Institute
- Biowissenschaften (26)
- Biochemie und Chemie (20)
- Physik (14)
- Pharmazie (9)
- Informatik (6)
- Geowissenschaften (5)
- Mathematik (3)
- Medizin (3)
- Psychologie (3)
- Gesellschaftswissenschaften (2)
Modern experiments in heavy ion collisions operate with huge data rates that can not be fully stored on the currently available storage devices. Therefore the data flow should be reduced by selecting those collisions that potentially carry the information of the physics interest. The future CBM experiment will have no simple criteria for selecting such collisions and requires the full online reconstruction of the collision topology including reconstruction of short-lived particles.
In this work the KF Particle Finder package for online reconstruction and selection of short-lived particles is proposed and developed. It reconstructs more than 70 decays, covering signals from all the physics cases of the CBM experiment: strange particles, strange resonances, hypernuclei, low mass vector mesons, charmonium, and open-charm particles.
The package is based on the Kalman filter method providing a full set of the particle parameters together with their errors including position, momentum, mass, energy, lifetime, etc. It shows a high quality of the reconstructed particles, high efficiencies, and high signal to background ratios.
The KF Particle Finder is extremely fast for achieving the reconstruction speed of 1.5 ms per minimum-bias AuAu collision at 25 AGeV beam energy on single CPU core. It is fully vectorized and parallelized and shows a strong linear scalability on the many-core architectures of up to 80 cores. It also scales within the First Level Event Selection package on the many-core clusters up to 3200 cores.
The developed KF Particle Finder package is a universal platform for short- lived particle reconstruction, physics analysis and online selection.
The chiral phase transition of Quantum Chromo Dynamics (QCD) is investigated with the help of the linear-sigma model and a numerical transport simulation. The scope are non-equilibrium and critical effects of the different type of orders of the transition. Additionally, a mathematical and numerical method is developed which allows to simulate a particle-wave duality and non-continuous interactions, even for classical systems.
The neural crest gives rise to the neurons and glial cells of the peripheral nervous system (PNS) (Bronner-Fraser and Fraser, 1989; Frank and Sanes, 1991). Self-renewing neural crest-derived stem cells (NCSCs) are present in migratory neural crest and various postmigratory locations, including peripheral ganglia (Duff et al., 1992; Morrison et al., 1999; Kruger er al., 2002). It is demonstrated that NCSCs from embryonic mouse dorsal root ganglia (DRG) are reprogrammed in neurosphere (NS) cultures in the presence of EGF and FGF. Reprogrammed NCSCs (rNCSCs) generate exclusively central nervous system (CNS) progeny, both in vitro and upon transplantation into the mouse brain (Binder et al., 2011). In this study the timing and mechanisms underlying the reprogramming were addressed. Most of the cells acquire CNS characteristics at passage 2, reaching a stable proportion of >90% of Olig2-positive cells at passage 3, which is maintained at least up to passage 10. The PNS marker p75 is completely lacking from passage 3 onwards. Furthermore, it was shown that the reprogramming does not involve a transient pluripotency state. This suggests a direct reprogramming of NCSCs to cells with CNS identity. The reprogramming leads to a stable CNS identity as shown by delayed BMP4 application. This result is in agreement with the previous observation that rNCSCs only generate CNS progeny, in particular mature myelinating oligodendrocytes, upon transplantation into embryonic, postnatal and lesioned adult mouse brains (Binder et al., 2011). Genome wide gene expression profiles of rNCSC NS demonstrates already in culture a complete switch to a (spinal cord stem cell) SCSC CNS identity. These results demonstrate a complete reprogramming of PNS progenitors to CNS identity without genetic modification and imply PNS cells as a source for stem cell-based CNS therapy.
The reprogramming of NCSCs is completely blocked in the presence of BMP4 in NS cultures, as shown by the expression of neural crest markers p75 and Sox10. In addition, BMP4 NCSCs generate PNS neurons (Tuj1/Phox2b- and Peripherin/Tuj1-coexpressing cells) and Schwann cells (O4/p75-coexpressing cells). Genome wide gene expression profiles of BMP NCSCs demonstrate that BMP NCSCs express genes at high levels which are characteristic for neural crest/neural crest derivatives, mesenchymal derivatives of neural crest and perivascular pericytes/MSCs. On the other hand CNS marker genes are restricted to rNCSCs and are only expressed at background or undetectable levels in BMP NCSCs. These findings imply that the CNS versus PNS identity is controlled by antagonistic functions of FGF and BMP4.
The use of rNCSCs for cell therapies requires an accessible source of these cells in the adult organism. Since the DRG is not an easily approachable tissue source, the adult mouse palate, containing NCSCs, was chosen. These results suggest that pNCSCs arise from Sox10-positive neural crest-derived stem cells, that downregulate PNS marker gene expression, such as Sox10 and p75, in NS culture. Contrary to rNCSCs, CNS marker upregulation was not observed. Notably, genome wide gene expression profiles of pNCSCs demonstrate an enrichment of genes expressed by mesenchymal derivatives and perivascular pericytes/mesenchymal stem cells. Since the cranial crest gives rise, besides PNS neural progeny and melanocytes, to mesenchymal derivatives, the results demonstrate that pNCSCs have a restricted developmental potential in comparison to rNCSCs and acquire mostly normal fates of the cranial neural crest.
Taken together, the results demonstrate that rNCSCs acquire a SCSC identity in the presence of EGF and FGF and that the reprogramming can be efficiently blocked by BMP4. On the other hand, NCSCs derived from adult palate rather acquire mesenchymal fates and do not acquire a CNS identity under the conditions used.
Hypertension is a primary risk factor for cardiovascular diseases including myocardial infarction and stroke. Major determinants of blood pressure are vasodilatory factors such as nitric oxide (NO) released from the endothelium under the influence of fluid shear stress exerted by the flowing blood. Defects in flow-induced NO formation go along with endothelial dysfunction, initiation and progression of atherosclerosis as well as with arterial hypertension. Previous work has identified several mechanotransducing signaling processes involved in fluid shear stress-induced endothelial effects. But how fluid shear stress initiates the response is poorly understood. Here, I show in human and bovine endothelial cells that the G-protein Gq/G11 and the purinergic receptor P2Y2 mediate fluid shear stress-induced endothelial responses such as Ca2+ release, nitric oxide (NO) formation and the phosphorylation of platelet-endothelial-cell-adhesion-molecule-1 (PECAM-1), vascular endothelial growth factor-2 (VEGFR-2) and Akt kinase as well as activation of the endothelial NO synthase (eNOS). P2Y2 receptor is activated by adenosine triphosphate (ATP) which is released from endothelial cells under the influence of fluid shear stress. Arteries with P2Y2 or Gαq/Gα11 deficiency have impaired flow-induced dilatation. Mice with induced endothelium-specific deficiency of P2Y2 or Gαq/Gα11 develop hypertension which is accompanied by reduced eNOS activation. My data identify P2Y2 and Gq/G11 as a critical endothelial mechano-signaling pathway located upstream of mechanotransducing processes described so far. Moreover, I demonstrate that P2Y2 and Gq/G11 are required for basal endothelial NO formation, vascular tone and blood pressure.
Transport processes across the membrane are essential to ensure survival of every living cell. Therefore, the exchange of membrane impermeable molecules is mediated by specific transport proteins, which are embedded in the lipid bilayer.
One important class comprises secondary active transporters, which couple very efficiently the uphill transport of the main substrate against its concentration gradient to the downhill transport of an additional substrate. These transporters are widely distributed among all kingdoms of life and accomplish many crucial functions. One function is to counteract the deleterious effect of hyperosmotic stress in bacteria. Several members of the BCCT (betaine-choline-carnitinetransport) family of secondary transporters mediate osmostress protection by the accumulation of the compatible solute betaine or its precursor choline (Lamark et al., 1991; Peter et al., 1996; Ziegler et al., 2010). Besides osmo-dependent sodium or proton-coupled symporters, the BCCT family includes few rare representatives of osmo-independent transporters such as the substrate:product antiporter CaiT from E. coli (Jung et al., 2002; Ziegler et al., 2010).
The best-characterized member of the BCCT family is the sodium-coupled betaine transporter BetP from Corynebacterium glutamicum. BetP together with the ABCtransporter OpuA and the H+-solute symporter ProP, became a paradigm for osmoregulated osmolyte transport. Although, all three transporters were extensively studied, the general mechanism of osmoregulation is still far from being understood. Thus, one task of this thesis was to elucidate further the regulatory properties of BetP.
BetP is tightly regulated by osmotic stress and is able to increase its basal betaine uptake activity dramatically upon elevated osmolalities within one second (Peter et al., 1998a). The osmotic stress is sensed by BetP via two stimuli, one is the increase of the internal K+ concentration above a threshold of 220 mM (Rübenhagen et al., 2001), the second is related to a change in the physical state of the membrane (Maximov et al., 2014). So far, several solved crystal structures in combination with functional and computational analysis provided insights into the coupling mechanism of betaine and its co-substrate sodium (Khafizov et al., 2012; Perez et al., 2012). Despite the wealth of data, the precise regulatory mechanism of trimeric BetP is still unclear.
In the present work, mismatch negativity (MMN) was used to examine the contribution of spectral vs. temporal perceptual features to vowel length discrimination in children and adults. Three age groups (adults vs. 9-10 years vs. 10-11 years olds) have been taken to examine developmental effects on vowel length perception. Natural (i.e., spectrotemporal) vowel length differences were compared with (artificially modified) stimulus pairs varying only in temporal or spectral characteristics to contrast spectral, temporal and spectrotemporal processing.
The result indicates that, while adults integrate spectral and temporal aspects of the speech signal in an additive way, children of 9-10 years of age sequentially process both features. However, vowel length processing is found to become adultlike at the age of 10-11 years.
In the first part of the thesis, we show that the payment flow of a linear tax on trading gains from a security with a semimartingale price process can be constructed for all càglàd and adapted trading strategies. It is characterized as the unique continuous extension of the tax payments for elementary strategies w.r.t. the convergence "uniformly in probability". In this framework, we prove that under quite mild assumptions dividend payoffs have almost surely a negative effect on investor’s after-tax wealth if the riskless interest rate is always positive. In addition, we give an example for tax-efficient strategies for which the tax payment flow can be computed explicitly.
In the second part of the thesis, we investigate the impact of capital gains taxes on optimal investment decisions in a quite simple model. Namely, we consider a risk neutral investor who owns one risky stock from which she assumes that it has a lower expected return than the riskless bank account and determine the optimal stopping time at which she sells the stock to invest the proceeds in the bank account up to the maturity date. In the case of linear taxes and a positive riskless interest rate, the problem is nontrivial because at the selling time the investor has to realize book profits which triggers tax payments. We derive a boundary that is continuous and increasing in time, and decreasing in the volatility of the stock such that the investor sells the stock at the first time its price is smaller or equal to this boundary.
Derivation and characterization of a new filter for nonlinear high-dimensional data assimilation
(2015)
Data assimilation (DA) combines model forecasts with real-world observations to achieve an optimal estimate of the state of a dynamical system. The quality of predictions in nonlinear and chaotic systems such as atmospheric or oceanic circulation is strongly sensitive to the initial conditions. Therefore, beyond the consistent reconstruction of past states, a primary relevance of advanced DA methods concerns the proper model initialization. The ensemble Kalman filter (EnKF) and its deterministic variants, mostly square root filters such as the ensemble transform Kalman filter (ETKF), represent a popular alternative to variational DA schemes. They are applied in a wide range of research and operations. Their forecast step employs an ensemble integration that fully respects the nonlinear nature of the analyzed system. In the analysis step, they implicitly assume the prior state and observation errors to be Gaussian. Consequently, in nonlinear systems, the mean and covariance of the analysis ensemble are biased and these filters remain suboptimal. In contrast, the fully nonlinear, non-Gaussian particle filter (PF) relies on Bayes' theorem without further assumptions, which guarantees an exact asymptotic behavior. However, it is exposed to weight collapse, particularly in higher-dimensional settings, known as the curse of dimensionality.
This work presents a new method to obtain an analysis ensemble with mean and covariance that exactly match the corresponding Bayesian estimates. This is achieved by a deterministic matrix square root transformation of the forecast ensemble, and subsequently a suitable random rotation that significantly contributes to filter stability while preserving the required second-order statistics. The forecast step remains as in the ETKF. The algorithm, which is fairly easy to implement and computationally efficient, is referred to as the nonlinear ensemble transform filter (NETF). The limitation with respect to fully-nonlinear filtering is that the NETF only considers the mean and covariance of the Bayesian analysis density, neglecting higher-order moments.
The properties and performance of the proposed algorithm are investigated via a set of experiments. The results indicate that such a filter formulation can increase the analysis quality, even for relatively small ensemble sizes, compared to other ensemble filters in nonlinear, non-Gaussian scenarios. They also confirm that localization enhances the applicability of this PF-inspired scheme in larger-dimensional systems. Finally, the novel filter is coupled to a large-scale ocean general circulation model with a realistic observation scenario. The NETF remains stable with a small ensemble size and shows a consistent behavior. Additionally, its analyses exhibit low estimation errors, as revealed by a comparison with a free ensemble integration and the ETKF. The results confirm that, in principle, the filter can be applied successfully and as simple as the ETKF in high-dimensional problems. No further modifications are needed, even though the algorithm is only based on the particle weights. Thus, it is able to overcome the curse of dimensionality, even in deterministic systems. This proves that the NETF constitutes a promising and user-friendly method for nonlinear high-dimensional DA.
Within this thesis, the mechanical integration of the Micro Vertex Detector (MVD) of the Compressed Baryonic Matter (CBM) experiment is developed. The CBM experiment, which is being set up at the future FAIR facility, aims to investigate the phase diagram of strongly interacting matter in the regime of high net-baryon densities and moderate temperatures. Heavy-ion collisions at beam energies in the range of 2 to 45 AGeV, complemented by results from elementary reactions, will allow access to these conditions. The experiments conducted at LHC (CERN, Switzerland) and at RHIC (BNL, USA = does not apply within the Beam Energy Scan program) so far focus on the investigation of the phase diagram in the regime of high temperatures and vanishing net-baryon densities. The high beam intensities provided by FAIR will enable CBM to focus its experimental program on systematical studies of rare particles. Among other particle species, open charm-carrying particles are one of the most promising observables to investigate the medium created in heavy-ion collisions since their charm quarks are exposed to the medium and traverse its whole evolution. The fact that the decay particles of these rare observables are also produced abundantly in direct processes in heavy-ion collisions results in a huge combinatorial background which attributes specific requirements to the detector systems. The call for a high interaction rate leads to a cutting-edge detector system which provides an excellent spatial resolution, thin detector stations and the capability to cope with the induced radiation as well as the high rate of traversing particles and the resulting track density. The required demands are to be implemented by the MVD which will be equipped with four planar stations positioned at 50, 100, 150 and 200 mm downstream the target. The geometrical acceptance, which has to be covered with charge-sensitive material, is defined according to the requirements of CBM in the polar angle range of [2.5°; 25°]. The MVD stations have to contribute as little as possible to the overall material budget. The expected beam intensity and the vicinity close to the target require silicon detectors that provide a hardness against non-ionizing radiation of more than 10^13 n_eq/cm² and against ionizing radiation of more than 1 Mrad. In addition, the read-out time of the sensors has to be as short as possible to avoid potential ambiguities in the particle tracking caused by the pile-up of hits having emerged from different collisions. For the time being, Monolithic Active Pixel Sensors (MAPS) offer the optimal choice of technology required to address the physics program of CBM with respect to the spectroscopy of open charm and di-electrons. The geometrical properties of these sensors define the layout of the detector. To limit the multiple scattering of the produced particles inside the geometrical acceptance, the sensors and the MVD have to operate in a moderate vacuum. The sensors are thinned down to a thickness of 50 µm and, to achieve a maximum polar angle coverage, they are glued onto both sides of dedicated thin carriers. These carriers, which are made of highly thermally conductive materials such as CVD diamond or encapsulated TPG, allow efficient extraction of the power produced in the sensors. This enables their operation at temperatures well below 0 °C as suggested by corresponding radiation hardness studies. Dedicated actively cooled aluminum-based heat sinks are positioned outside of the acceptance to dissipate the heat produced by the sensors and the front-end electronics. The design of the MVD, including the realistic thicknesses of the integrated materials, has been developed and refined in the context of this thesis. It has been transformed into a unique software model which is used to simulate and further optimize the mechanical and thermal properties of the MVD, as well as in sophisticated physics simulations. The model allowed evaluation of the material budget of each individual MVD station in its geometrical acceptance. The calculated averaged material budget values stay well below the material budget target values demanded by the physics cases. The thermal management of the MVD has been simulated on the level of a quadrant of each MVD station – four identically constructed quadrants are forming an MVD station – taking into account material properties of the sensors, the glue and the sensor carrier. The temperature gradients across the pixels of a given sensor area in the direction of the rows and columns were found to be in an acceptable range of below 5 K. A temperature difference between the thermal interface area and the maximum sensor temperature of dT = 5 K on the first and a value of dT = 40 K on the fourth MVD station has been thermally simulated assuming a sensor power dissipation of 0.35 W/cm², highlighting the need to optimize the thermal interface between the involved materials as well as the power dissipation of the sensors. The feasibility of several key aspects required for the construction phase of the MVD has been investigated within the MVD Prototype project. The construction of the MVD Prototype allowed evaluation, testing and validation of the handling and the double-sided integration of ultra-thin sensors – the required working steps for their integration have been specified, evaluated and successfully established – as well as their operation in the laboratory and during a concluding in-beam test using high-energetic pions provided by the CERN-SPS. The thermal characterization of the MVD Prototype during its operation – in a temperature range from [5 °C; 25 °C], not in vacuum – confirmed the corresponding thermal simulations conducted during its design phase and substantiated the results of the thermal simulations for the design of the MVD. The aim of a material budget value of only x/X_0 ~ 0.3% for the MVD Prototype has been accomplished. Analyzing the in-beam data, the nominal sensor performance parameters were successfully reproduced, demonstrating that the proposed integration process does not impair the sensors’ performance. Moreover, no evidence of potential impact on the sensors’ performance arising from mechanical weaknesses of the MVD Prototype mechanics has been found within the analyzed data. Based on the MVD Prototype and the simulations of the material budget as well as the thermal management, this thesis evaluated the work packages, procedures and quality assurance parameters needed to set up the starting version of the MVD and addressed open questions as well as critical procedures to be studied prior to the production phase of the detector, emphasizing the evaluation of the cooling concept in vacuum and the integration of sensors in ladder structures on both sides of the quadrants of the MVD stations.
This thesis presents microstructural investigations of rock salt from the central part of the Gorleben salt dome (Northern Germany). The main emphasis was to characterize the rock salt microfabrics, to identify operating deformation mechanisms in halite and anhydrite and to decipher the macro- and microstructural distribution of hydrocarbons, which have been encountered during the underground exploration of the salt dome. The microfabrics of the Knäuel- and the Streifensalz formation indicate that strain-induced grain boundary migration has been active during deformation of halite. Crystal plastic deformation of halite is further documented by lattice bending, subgrain formation and minor subgrain rotation. Evidence for pressure solution of halite has not been found, but cannot be excluded because of the small grain size, the lack of LPO and the low differential stress (1.1 - 1.3 MPa) as deduced from subgrain-size piezometry. Solution precipitation creep was proven for intercalated anhydrite layers and clusters, which have been deformed in the brittle-ductile regime. Brittle deformation of anhydrite in terms of boudinage and fracturing was counteracted by viscous creep of halite which caused a re-sealing of fractures and a reestablishing of the characteristic sealing capacity of rock salt. Hydrocarbons are mainly located along cross cut 1 West of the Gorleben exploration mine and are heterogeneously distributed in the rock salt. They are incorporated in the rock salt foliation in the form of streaks, dispersed clouds, clusters and isolated patches. On the micro-scale, hydrocarbons are trapped along grain boundaries of halite and/or anhydrite, in micro-capillary tubes of anhydrite and in pore space of the rare rock salt with elevated porosity (< 1.26 vol.-%). Such elevated porosities correlate with elevated hydrocarbon concentrations of several hundred ppm. The overall concentrations of hydrocarbons, however, are very low (< 0.05 wt.-%). Elevated porosity is depicted to be a remnant originating from an early stage of salt uplift when fluid and hydrocarbons have migrated and spread from the Staßfurt Karbonat (z2SK) into the superjacent Gorleben Hauptsalz. During halokinesis and the strong reworking of the salt body hydrocarbons have been redistributed and dismembered resulting in the isolated present-day occurrences. The distribution of hydrocarbons shows no relation to local variations in the rock salt fabric. The microstructures of hydrocarbon-bearing and hydrocarbon-free Gorleben rock salt are not distinguishable from each other. Likewise, the presence of hydrocarbons should not have influenced the mechanical behavior or the rock salt as indicated by the microfabrics studied and by geomechanical data. The pure amounts of hydrocarbons are too low for any detectable impact on the barrier properties of this part of rock salt. Although hydrocarbons have migrated into the Gorleben Hauptsalz during an early stage of salt uplift when the sealing capacity of rock salt was diminished, the major implication of their isolated distribution patterns is that the Gorleben rock salt was able to regain its sealing capacity during subsequent deformation and re-equilibration. Former migration pathways for fluid and hydrocarbons have been healed and do not exist anymore. The application of X-ray computed tomography (CT) allows the 3D visualization and quantification of anhydrite, pore space and fluid phases located along grain-boundaries or trapped as intracrystalline inclusions. The 3D reconstruction of anhydrite clusters and pore space for the same sample reveals different spatial distribution patterns. This fact implies that anhydrite is not responsible for such elevated pore space in the rock salt studied, which has been largely closed during the polyphase deformation history of the Gorleben salt dome. High-resolution nanoCT scans (≤ 1 μm voxel size) of single intra- and intercrystalline fluid inclusions in rock salt enable a characterization of gaseous, solid and liquid phases inside single fluid inclusions and give exact information on morphology and shape. The 3D reconstruction of grain boundary fluid inclusions allows the amount, volumes, surface areas or diameters of various types to be determined. Non-destructive X-ray CT imaging is presented as very useful tool to characterize the structural inventory of rock salt. This non-destructive technique offers new perspectives for microstructural studies and for a wide range of research in structural geology, in general.